the way you want it

2D Protein Gel Image Capture and Analysis

2D protein gel image capture and

analysis systems

Syngene’s solutions for protein gel applications

Syngene can offer you a selection of products to cover your 2D gel needs:

• A scanning system to capture high resolution 2D gel images

• An advanced 2D gel imaging system for capturing all visible and

fluorescent 2D gel images

• Impressive 2D gel analysis software for the analysis of

post-electrophoretically stained gels and for multiplexed gels using

pre-electrophoretic dyes

Post-electrophoretic

visible dyes - Silver,

Coomassie Blue

Post-electrophoretic

fluorescent dyes

Sypro Ruby,

Deep Purple,

Pro-Q Diamond,

Flamingo

Pre-electrophoretic

fluorescent dyes

Cy2, Cy3, Cy5

Dye requirement

IEF-SYS

IEF-SYS

Electrophoresis system

Dymension 1,

2 and 3

Dymension 1,

2 and 3

Dymension 3

Image analysis software

Dyversity and

ProteomeScan

Dyversity

Dyversity

with enhanced

lighting module

Image capture systems

Syngene has a worldwide reputation for producing high quality imaging and analysis systems for proteomics.

Generating, capturingand analysing 2D

protein gels

Generation Image capture Image analysisProduce quality 2D gels with high

levels of reproducibility using gel

tanks.

Use Dyversity to capture visible

and fluorescent protein gels or

ProteomeScan for just visible gels.

Dymension is a premium software

capable of analysing all 2D gel

images quickly and accurately.

The purpose of a typical 2D gel

based proteomics experiment is

to look for changes in protein

expression as a result of changing

a sample condition. Protein spots

may be lost or gained, up or

down regulated or moved due to

a post-translational modification.

The number of different proteins ex-

pressed can be thousands and the

differences in protein

abundance during expression can

cover many orders of magnitude.

Dymension is revolutionary software

that can analyse a typical 2D gel

image rapidly. It features novel

algorithms for background

subtraction, noise filtering, precise

warping, rapid matching, spot

detection and reduced image

editing time. Using its powerful spot

detection algorithm, Dymension

instantly locates and analyses

protein spots. With Dymension,

the entire analysis process from

background correction to spot

matching results and reporting takes

minutes, making this the fastest 2D

gel analysis package currently avail-

able.

Clearly software that is easy to use, fast and very accurate is essential.

D M E N S I O N

2D image analysis software

Matched spots are blue andnon-matched spots are cyancoloured

Dynamicallylinked imagepanes, tables and charts

Dymension is available in three

versions, and upgrading between

the packages is simple:

Dymension 1 is a basic level

software for the analysis of

post-electrophoretically stained

gels where the protein spots are

compared between samples

containing one replicate gel only.

Dymension 2 is for the analysis

of post-electrophoretically stained

gels where the protein spots are

compared between samples

containing any number of replicate

gels.

Dymension 3 is for the analysis

of post-electrophoretically stained

gels where the protein spots

are compared between samples

containing any number of

replicate gels, as well as analysing

pre-electrophoretically stained gels,

(e.g. Cy dyes).

D M E N S I O N

1

Warped and non-warped imagesfor assessment of spot differences

The softwarecan be easily upgraded to Dymension 2or 3 if the proteomic needs of thelaboratorychange.

Interactive process flow panel

Dymension 1 is ideal for users

looking for software to analyse

spots between samples containing

one replicate gel only. It offers a

range of automatic image correction

features and methods for resolving

and analysing spots on single gels.

The results of the analysis are

displayed as a dynamically linked

table, 3D spot profile, bar chart,

scatter and correlation plot, which

makes it easy to compare many

expression profiles simultaneously

and therefore accurately select

proteins suitable for further

analysis.

The software automatically detects and assigns statistical confidence toeach and every difference in normalised spot volume, thus accurately highlighting proteins of specific interest.

D M E N S I O N

2

Independent 2D and 3D renderings in all image panes

Spot assignmentfollowing massspectrometry withmolecular weightand pI calibration

Dymension 2 is suitable for the

analysis of post-electrophoretically

stained gels. It has all the features

of Dymension 1 but with the added

ability to detect and compare

protein spots between samples

containing multiple gel replicates.

The software offers background

correction and noise filtering

features including a SYPRO®

Ruby filter. This will detect and au-

tomatically remove spots caused by

SYPRO® Ruby crystals adhering to

the gel, thus saving users

valuable time. This is suitable for

users that need to determine the

amount of protein present before

and after drug or protein induction

treatments. Matched spot plot to assess replicate quality

This software allowsusers to analyse multiple sets of any type of 2D proteingel, regardless of how it was stained.

D M E N S I O N

3

User selectedspots for presentation

Correlation plotto assess systemvariation

Accurate spot detection with table and bar chart display

Dymension 3 is suitable for the

analysis of post-electrophoretically

stained gels, as well as

pre-electrophoretically stained gels.

It has all the functionality of

Dymension 2, so can be used to

analyse samples containing multiple

gel replicates, but with the additional

capability to analyse multiplexed

fluorescent gel images stained with

up to three contrasting fluorescent

labels for example, Cy2, Cy3

and Cy5.

Icon driven user interface Simple software set-up and use

Accepts data from a TWAIN source Versatile as accepts gel images generated by most

commercial scanners

Experiment set up wizard Fast, comprehensive analysis

Process flow chart Easy guide for user from image loading to obtaining results

Automatic background correction Saves time with spot editing

and noise filtering

Automatic and precise sample warping Faster spot matching

Revolutionary spot detection algorithms Rapid spot detection and splitting

User definable spot detection Flexible as allows user adjustments

parameters

Spot editing and filtering functions Control of spot editing and filtering parameters

Automatic spot normalisation Improves accuracy of results

View results in a dynamically linked Easy to compare many expression profiles simultaneously

table, 3D spot profile, bar chart, and quickly select proteins of interest

scatter and correlation plot

Transfers results to Word or Excel Simple production of professional reports

Exports coordinates to automated Fast and precise interface between Dymension and

spot pickers spot pickers

Automatic filtering of Sypro Ruby Saves time with spot editing

crystals

Optional Gaussian spot fitting Choice of spot detection models

Automatic and precise replicate Faster spot matching as the replicate images are properly

warping aligned

Automatic matching of samples Improves accuracy by reducing manual editing time

containing unlimited number of

replicates

Internet links to federated databases Quick presentation of protein sequence and structure

Dyversity compatible Direct analysis of GLP secure images using the

Dyversity unique capture system

Analysis of multiplexed Cost effective as one software will analyse all types of

and non-multiplexed gels 2D gel stains (e.g. Cy2, Cy3, Cy5)

Dymension Features Benefits

1 2 3

D M E N S I O N

Gel staining and image capture

With 2D gel electrophoresis,

spots can be stained

post-electrophoretically using a

stain that is visible to the naked

eye under white light (Silver or

Coomassie Blue). Alternatively,

a dye that is fluorescent when

illuminated by light of a specific

wavelength (for example Sypro®

Ruby, Deep Purple, Pro-Q Diamond,

Flamingo) can be used. Proteins

can also be labelled prior to

electrophoresis using Cy dyes.

High dynamic range and excellent

resolution are required for an

imaging system if spots of different

abundance and morphology are

to be compared and precisely

detected.

Silver White light High sensitivity (0.5-1ng protein)

Coomassie Blue White light Quick, easy, inexpensive, good sensitivity (30-50ng protein)

Sypro® Ruby, Deep Purple, UV or Fluorescence High sensitivity (1-2ng protein), large dynamic range

Pro-Q Diamond, Flamingo

Cy2, Cy3, Cy5 Fluorescence High sensitivity (1ng for minimal and 0.1ng for saturation dyes)

Protein Dye Mode Advantages

In all cases the 2D gel is captured as a digital file using either a scanner or a CCD camera based system.

D V E R S I T YY

High performance 2D gel imaging system

The Dyversity high performance

imaging system is designed to

capture 2D gel images from

fluorescent and visible stained gels.

At the heart of Dyversity is a 16 bit,

cooled, mega-pixel camera that

excels at resolving the high density

and large dynamic range of proteins

found on a typical 2D gel.

The instrument has a unique

darkroom enabling excellent access

to the chamber for gel manipulation

and image preview. This darkroom

is fully computer controlled with

all lighting and camera settings

accessed using GeneSys image

acquisition software provided with

the system.

Dyversity can capture images

across a range of sizes.

The system uses lighting modules

to illuminate or excite most common

2D gel protein stains; these include

Coomassie Blue, Silver, Sypro Ruby,

Pro-Q Diamond, Pro-Q Emerald,

Deep Purple, Flamingo and Cy dyes.

Since it has an array of lighting

options, Dyversity can also be used

for other sample formats such as

DNA and 1D protein gels,

membranes, spot-blots, TLC plates,

colony plates and microtitre plates.

This is achieved by using

fluorescence, absorbance and

reflectance excitation modes and

the appropriate emission filter in the

7-position motorised filter wheel.

Dyversity is also suitable for

chemiluminescence applications.

Dyversity uses a very high

resolution camera which enables

a “single shot” of the gel to be

captured. There is no need to

capture multiple images of the same

gel, which would require ‘stitching’.

This eliminates potential inherent

defects as a result of the stitching

process.

Faster imaging times can be

achieved compared to conventional

laser scanning and scanning camera

systems.

With Dyversity you simply get a high quality image every time resulting in superior accuracy and reliable measurements for all 2D gels.

D V E R S I T YY

Ultra high speed image capture Rapid image capture improves throughput rates

Mega pixel resolution using the latest 16 bit cooled Enables a ‘single shot’ image with no stitching

CCD technology

High sensitivity enabling detection to sub-nanogram Capture image with low abundance proteins

levels of protein

Dyversity can capture images of practically any Complete laboratory workstation

type of application

Multiplexed image capture using Syngene’s three colour Capture images from all typical protein gels including

lighting module featuring advanced illumination those using Cy dyes with no emission ‘crosstalk’

Features Benefits

D V E R S I T YY

Unique to Dyversity is the optional

advanced illumination system used

to capture images of

pre-electrophoretically stained

gels. With its specialised design,

the module uses edge illumination

to excite proteins stained with

Cy2TM, Cy3TM or Cy5TM dyes. The

illumination module gives excellent

spectral separation producing no

‘crosstalk’ between the dyes. Using

this module, pre-electrophoretically

stained 2D gels up to 28cm x 21cm

can be captured.

A typical Cy dye gel set, (a gel

using Cy2, Cy3 and Cy5), can

be captured by Dyversity with

90 micron resolution in under

8 minutes. In comparison, a fast

laser based system at 100 microns

resolution will take around 42

minutes to scan the same gel set.

400

WAVELENGTH

500

Cy2 Cy3 Cy5

600 700 800

LU

MIN

ES

CE

NC

E

EXCITATION

EMISSION

Cy dye characteristics

Edge illumination ofa typical protein gelusing Cy dyes (Cy2,Cy3, Cy5)

Darkroom

Cameras

Lens

Sample tray

Filter mechanism

Application options:Sypro RubyDeep PurplePro-Q DiamondFlamingoCoomassieSilverCy dyesPro-Q Emerald

Illumination optionsChoose from thelist in the table

Software

Computer option

Printer option

Power input

G:BOX extended configurationLight tight with enclosed camera and lens

DYVERSITY 6CCD camera6m pixels (3072 x 2048)16 bit 0 - 65,535 black/white levelDeep and low cooling

F1.4 Motor driven lens

Motor driven adjustable sample tray

7 position motor driven filter wheel

Edge illumination Cy2 with Cy3 filter or use UV Transilluminator with UV filterEdge illumination Cy3 with Cy3 filter or use UV Transilluminator with UV filterEdge illumination Cy3 with Cy3 filter or use UV Transilluminator with UV filterEdge illumination Cy2 with Cy3 filter or use UV Transilluminator with Short Pass filterUse visible light with ND filterUse visible light with ND filterEdge illumination Cy2, Cy3, Cy5 with Cy2, Cy3, Cy5 filtersUV Transilluminator with short pass filter

• UV Transilluminator 20cm x 20cm• UV Transilluminator 25cm x 30cm• Visible light NovaGlo• Epi white light• Epi UV• Edge Cy dye lighting module large (illumination table up to 28cm x 21cm sample size)• Edge Cy dye lighting module standard (illumination table up to 15cm x 16cm sample size)

GeneSys image acquisition only

Check latest specifications before ordering

Digital thermal black and white256 black/white levelsPrint speed under 4 seconds

100 - 240V

System specification

D V E R S I T YY

Sample selection Dye selection

User-friendly icon driven software Saves time with system set up and use

User controlled resolution, compression and scan speed Versatile-choice of high quality or rapid image generation

Transmittance and reflectance mode Flexible imaging applications

Variable colour scanning Accurate detection of all visible coloured proteomic dyes

Fully sealed unit Safe as protected against leaks of hazardous liquids

from gels

Direct image transfer into Dymension software Fast workflow

Scanner imaging system

Features Benefits

P O T E O M E S C A NR

The ProteomeScan scanner is

designed for those users imaging

2D gels that have been stained with

visible dyes such as Silver and

Coomassie Blue. The scanner has

been optimised for use with wet

gels as it is sealed and has a special

filter fitted. It is supplied with icon

driven software and can generate,

in seconds, high quality 2D gel

images that can be automatically

transferred into Dymension analysis

software.

With ProteomeScan, users can

switch between transmittance and

reflectance modes and can select

image quality.

The product is available in two

versions; the A4 Pro or the A3 Pro for

imaging gels up to 20.2cm x 25.3cm

and to 31cm x 43cm, respectively.

The system can generate images of up to 12,800 x 12,800 dpi resolution to ensure detection of the smallest protein spots.

System High quality 2D image scanner High quality 2D image scanner

Modes Transmittance and reflectance Transmittance and reflectance

Maximum gel size 202mm x 253mm 310mm x 437mm

Optical resolution 1600 x 3200 dpi 2400 x 4800 dpi

Interpolated resolution 12800 x 12800 dpi 12800 x 12800 dpi

Resolution 16 bit grey levels, 48 bit colour 16 bit grey levels, 24 bit colour

Scan optical density range 3.6 OD 3.8 OD

Scan speed 9.2ms/line (colour) 5.3ms/line greyscale 2400 dpi

16ms/line colour 2400 dpi

Interface Fast SCSI, USB IEEE 1394 firewire, high speed

USB2

Power input 100-240V 100-240V

ProteomeScan A4 Pro

System specification

ProteomeScan A3 Pro

P O T E O M E S C A NR

Automaticselection

Syngene Europe and

International Headquarters:

Beacon House Nuffield Road

Cambridge CB4 1TF UK

Tel: +44 (0)1223 727123

Fax: +44 (0)1223 727101

email: sales@syngene.com

Syngene USA Headquarters:

5108 Pegasus Court Suite M

Frederick MD 21704 USA

Tel: 800-686-4407/301-662-2863

Fax: 301-631-3977

email: ussales@syngene.com

Website: www.syngene.com

A.044.0511All trademarks acknowledged